RnoEX0023100 @ rn6
Exon Skipping
Gene
ENSRNOG00000050706 | Col25a1
Description
collagen type XXV alpha 1 chain [Source:RGD Symbol;Acc:1590105]
Coordinates
chr2:235667580-235674852:+
Coord C1 exon
chr2:235667580-235667657
Coord A exon
chr2:235673869-235673892
Coord C2 exon
chr2:235674808-235674852
Length
24 bp
Sequences
Splice sites
3' ss Seq
TTGATCCATTTTCCCAACAGAGG
3' ss Score
8.97
5' ss Seq
ACGGTAACG
5' ss Score
7.77
Exon sequences
Seq C1 exon
GGTCCTCCTGGGCAAAAGGGAGATCCAGGAGCCACTGAGATCATAGACTACAATGGCAACCTCCATGAGGCCTTACAG
Seq A exon
AGGATTACCACCTTAACTGTCACG
Seq C2 exon
GGCCCGCCTGGACCTCCTGGACCTCAAGGACTGCAAGGACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050706_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=1.000 C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(21.1=42.9)
A:
PF0139113=Collagen=PU(1.7=12.5)
C2:
PF0139113=Collagen=FE(24.1=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAAAGGGAGATCCAGGAGC
R:
CTTGCAGTCCTTGAGGTCCAG
Band lengths:
104-128
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]